Matthew Cliff

2025

Site-selective photo-crosslinking for the characterisation of transient ubiquitin-like protein-protein interactions

Sandy, Z., Wang, Z., Behera, D., Foster, B. M., Martin, F. A., Brüninghoff, K., Cain, K. M., Dörner, W., Cabello-Lobato, M. J., Forment, J. V., Cliff, M. J., Larrosa, I., Barran, P., Smith, D. L., Mootz, H. D. & Schmidt, C. K., 27 Jan 2025, In: PLoS ONE. 20, 1, e0316321.

Research output: Contribution to journal › Article › peer-review

Open Access

2024

Backbone ¹H,¹³C and ¹⁵N resonance assignment of the ubiquitin specific protease 7 catalytic domain (residues 208–554) in complex with a small molecule ligand

Pandya, M., Augustyniak, W., Cliff, M., Lindner, I., Stinn, A., Kahmann, J., Temmerman, K., Dannatt, H., Waltho, J. & Watson, M., 1 Jun 2024, In: Biomolecular NMR Assignments. 18, 1, p. 33-44 12 p.

Research output: Contribution to journal › Article › peer-review

Enzyme stabilisation due to incorporation of a fluorinated non-natural amino acid at the protein surface

Mukhopadhyay, A., Li, Y., Cliff, M. J., Golovanov, A. P. & Dalby, P. A., 14 Nov 2024, In: Scientific Reports. 14, 1, p. 28080

Research output: Contribution to journal › Article › peer-review

Open Access

Metal fluorides: Multi-functional tools for the study of phosphoryl transfer enzymes

Pellegrini, E., Juyoux, P., Velsen, J. V., Baxter, N. J., Dannatt, H. R. W., Yi, J., Cliff, M. J., Waltho, J. P. & Bowler, M. W., 27 Mar 2024, In: bioRxiv.

Research output: Contribution to journal › Article

Metal fluorides—multi-functional tools for the study of phosphoryl transfer enzymes, a practical guide

Pellegrini, E., Juyoux, P., von Velsen, J., Baxter, N. J., Dannatt, H. R. W., Jin, Y., Cliff, M. J., Waltho, J. P. & Bowler, M. W., 3 Oct 2024, In: Structure. 32, 10, p. 1834-1846.e3

Research output: Contribution to journal › Article › peer-review

Open Access

Peri active site catalysis of proline isomerisation is the molecular basis of allomorphy in β-phosphoglucomutase

Cruz-Navarrete, F. A., Baxter, N. J., Flinders, A. J., Buzoianu, A., Cliff, M. J., Baker, P. J. & Waltho, J. P., 27 Jul 2024, In: Communications Biology. 7, 909.

Research output: Contribution to journal › Article › peer-review

Open Access

Photocobilins integrate B₁₂ and bilin photochemistry for enzyme control

Zhang, S., Jeffreys, L. N., Poddar, H., Yu, Y., Liu, C., Patel, K., Johannissen, L. O., Zhu, L., Cliff, M. J., Yan, C., Schirò, G., Weik, M., Sakuma, M., Levy, C. W., Leys, D., Heyes, D. J. & Scrutton, N. S., Dec 2024, In: Nature Communications. 15, 1, 2740.

Research output: Contribution to journal › Article › peer-review

Open Access

2022

A Chiral 19F NMR Reporter of Foldamer Conformation in Bilayers

Wang, S., Della sala, F., Cliff, M. J., Whitehead, G. F. S., Vitórica-Yrezábal, I. J. & Webb, S. J., 15 Nov 2022, (E-pub ahead of print) In: Journal of the American Chemical Society.

Research output: Contribution to journal › Article › peer-review

Open Access

An Enzyme with High Catalytic Proficiency Utilizes Distal Site Substrate Binding Energy to Stabilize the Closed State but at the Expense of Substrate Inhibition

Robertson, A. J., Cruz-Navarrete, F. A., Wood, H. P., Vekaria, N., Hounslow, A. M., Bisson, C., Cliff, M. J., Baxter, N. J. & Waltho, J. P., 4 Mar 2022, In: ACS Catalysis. 12, 5, p. 3149-3164 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Microarray screening reveals two non-conventional SUMO-binding modules linked to DNA repair by non-homologous end-joining

Cabello-Lobato, M. J., Jenner, M., Cisneros-Aguirre, M., Brüninghoff, K., Sandy, Z., Da Costa, I. C., Jowitt, T. A., Loch, C. M., Jackson, S. P., Wu, Q., Mootz, H. D., Stark, J. M., Cliff, M. J. & Schmidt, C. K., 6 May 2022, In: Nucleic acids research. 50, 8, p. 4732-4754 23 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Spinning sugars in antigen biosynthesis: characterization of the Coxiella burnetii and Streptomyces griseus TDP-sugar epimerases

Cross, A. R., Roy, S., Vega, M. V., Rejzek, M., Nepogodiev, S. A., Cliff, M., Salmon, D., Isupov, M. N., Field, R. A., Prior, J. L. & Harmer, N. J., 5 May 2022, In: Journal of Biological Chemistry. 101903.

Research output: Contribution to journal › Article › peer-review

Open Access

Structural and biochemical characterisation of the prenylated flavin mononucleotide-dependent indole-3-carboxylic acid decarboxylase

Gahloth, D., Fisher, K., Payne, K. A. P., Cliff, M., Levy, C. & Leys, D., 24 Feb 2022, In: Journal of Biological Chemistry. p. 101771

Research output: Contribution to journal › Article › peer-review

Open Access

2021

1H, 13C, 15N backbone resonance assignment for the 1-164 construct of human XRCC4

Cabello Lobato, M. J., Schmidt, C. & Cliff, M., 14 Jun 2021, (Accepted/In press) In: Biomolecular NMR Assignments.

Research output: Contribution to journal › Article › peer-review

Structure and mechanism of Pseudomonas aeruginosa PA0254/HudA, a prFMNdependent pyrrole-2-carboxylic acid decarboxylase linked to virulence

Payne, K., Marshall, S., Fisher, K., Rigby, S., Cliff, M., Spiess, R., Cannas, D., Larrosa, I., Hay, S. & Leys, D., 5 Feb 2021, (Accepted/In press) In: ACS Catalysis.

Research output: Contribution to journal › Article › peer-review

Structure and Mechanism of Pseudomonas aeruginosa PA0254/HudA, a prFMN-Dependent Pyrrole-2-carboxylic Acid Decarboxylase Linked to Virulence

Payne, K. A. P., Marshall, S. A., Fisher, K., Rigby, S. E. J., Cliff, M. J., Spiess, R., Cannas, D. M., Larrosa, I., Hay, S. & Leys, D., 5 Mar 2021, In: ACS Catalysis. 11, 5, p. 2865-2878 14 p.

Research output: Contribution to journal › Article › peer-review

Open Access

The Relationship between Enzyme Conformational Change, Proton Transfer, and Phosphoryl Transfer in β-Phosphoglucomutase

Robertson, A. J., Wilson, A. L., Burn, M. J., Cliff, M. J., Popelier, P. L. A. & Waltho, J. P., 5 Nov 2021, In: ACS Catalysis. 11, 21, p. 12840-12849 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

2020

Allomorphy as a mechanism of post-translational control of enzyme activity

Wood, H. P., Cruz-Navarrete, F. A., Baxter, N., Trevitt, C., Robertson, A. J., Dix, S. R., Hounslow, A. M., Cliff, M. & Waltho, J., 2 Nov 2020, In: Nature Communications.

Research output: Contribution to journal › Article › peer-review

Open Access

Structural effects of the highly protective V127 polymorphism on human prion protein

Hosszu, L. L. P., Conners, R., Sangar, D., Batchelor, M., Sawyer, E. B., Fisher, S., Cliff, M. J., Hounslow, A. M., McAuley, K., Brady, R. L., Jackson, G. S., Bieschke, J., Waltho, J. P. & Collinge, J., 29 Jul 2020, In: Communications Biology.

Research output: Contribution to journal › Article › peer-review

Open Access

2019

Enzymatic Carboxylation of 2-Furoic Acid Yields 2,5-Furandicarboxylic Acid (FDCA)

Payne, K. A. P., Marshall, S., Fisher, K., Cliff, M. J., Cannas, D., Yan, C., Heyes, D. J., Parker, D., Larrosa, I. & Leys, D., 15 Feb 2019, In: ACS Catalysis. 9, 4, p. 2854-2865 12 p.

Research output: Contribution to journal › Article › peer-review

Equatorial active site compaction and electrostatic reorganization in catechol-O-methyltransferase

Czarnota, S., Johannissen, L. O., Baxter, N. J., Rummel, F., Wilson, A., Cliff, M. J., Levy, C. W., Scrutton, N. S., Waltho, J. P. & Hay, S., 2019, In: ACS Catalysis. 9, 5, p. 4394-4401 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Isotopically labeled flavoenzymes and their uses in probing reaction mechanisms

Iorgu, A. I., Cliff, M., Waltho, J., Scrutton, N. & Hay, S., 2019, In: Methods in Enzymology.

Research output: Contribution to journal › Article › peer-review

Mapping hidden residual structure within the Myc bHLH-LZ domain using chemical denaturant titration

Panova, S., Cliff, M., Macek, P., Blackledge, M., Jensen, M. R., Nissink, J. W. M., Embrey, K. J., Davies, R. & Waltho, J., 2019, In: Structure.

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Open Access

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2018

H-1, N-15 and C-13 backbone resonance assignments of pentaerythritol tetranitrate reductase from Enterobacter cloacae PB2

Iorgu, A. I., Baxter, N. J., Cliff, M. J., Waltho, J. P., Hay, S. & Scrutton, N. S., Apr 2018, In: Biomolecular NMR Assignments. 12, 1, p. 79-83 5 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Myc phosphorylation in its basic helix–loop–helix region destabilizes transient α-helical structures, disrupting Max and DNA binding

Macek, P., Cliff, M. J., Embrey, K. J., Holdgate, G. A., Nissink, J. W. M., Panova, S., Waltho, J. P. & Davies, R. A., 15 Jun 2018, In: Journal of Biological Chemistry. 293, 24, p. 9301-9310

Research output: Contribution to journal › Article › peer-review

Non-equivalence of second sphere ‘non-catalytic’ residues in pentaerythritol tetranitrate reductase in relation to local dynamics linked to H-transfer in reactions with NADH and NADPH coenzymes

Iorgu, A. I., Baxter, N. J., Cliff, M. J., Levy, C., Waltho, J. P., Hay, S. & Scrutton, N. S., 7 Dec 2018, In: ACS Catalysis. 8, 12, p. 11589-11599 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

The role of conserved residues in Fdc decarboxylase in prenylated flavin mononucleotide oxidative maturation, cofactor isomerization, and catalysis

Bailey, S. S., Payne, K. A. P., Fisher, K., Marshall, S. A., Cliff, M. J., Spiess, R., Parker, D. A., Rigby, S. E. J. & Leys, D., 16 Feb 2018, In: Journal of Biological Chemistry. 293, 7

Research output: Contribution to journal › Article › peer-review

Open Access

van der Waals contact between nucleophile and transferring phosphorus is insufficient to achieve enzyme transition state architecture

Johnson, L. A., Robertson, A. J., Baxter, N., Trevitt, C. R., Bisson, C., Jin, Y., Wood, H. P., Hounslow, A. M., Cliff, M., Blackburn, G. M., Bowler, M. W. & Waltho, J., 7 Sept 2018, In: ACS Catalysis. 8, 9

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2017

¹H, ¹⁵N, ¹³C backbone resonance assignments of human phosphoglycerate kinase in a transition state analogue complex with ADP, 3-phosphoglycerate and magnesium trifluoride

Serimbetov, Z., Baxter, N. J., Cliff, M. J. & Waltho, J. P., 1 Oct 2017, In: Biomolecular NMR Assignments. 11, 2, p. 251-256 6 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1H, 15N, 13C backbone resonance assignments of human soluble catechol Omethyltransferase in complex with S-adenosyl-L-methionine and 3,5-dinitrocatechol

Czarnota, S., Baxter, N. J., Cliff, M. J., Waltho, J. P., Scrutton, N. S. & Hay, S., Apr 2017, In: Biomolecular NMR Assignments. 11, 1, p. 57-61 5 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Assessing the Influence of Mutation on GTPase Transition States by Using X‐ray Crystallography, ¹⁹F NMR, and DFT Approaches

Jin, Y., Robert W. Molt, J., Pellegrini, E., Cliff, M. J., Bowler, M. W., Richards, N. G. J., Blackburn, G. M. & Waltho, J. P., 7 Aug 2017, In: Angewandte Chemie. 129, 33, p. 9864-9867 4 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Assessing the Influence of Mutation on GTPase Transition States using X-ray, 19F NMR, and DFT Approaches

Jin, Y., Molt, R. W., Pellegrini, E., Cliff, M., Bowler, M. W., Richards, N. G. J., Blackburn, G. M. & Waltho, J., 2 Aug 2017, In: Angewandte Chemie. 56, 33, p. 9732-9735 4 p.

Research output: Contribution to journal › Article › peer-review

Open Access

2016

Characterizing monoclonal antibody formulations in arginine glutamate solutions using 1H NMR spectroscopy

Kheddo, P., Cliff, M., Uddin, S., van der Walle, C. F. & Golovanov, A., 11 Aug 2016, In: mAbs. 8, 7, p. 1245-1258

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Open Access

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Structural basis for selective interaction between the ESCRT regulator HD-PTP and UBAP1

Gahloth, D., Levy, C., Heaven, G., Stefani, F., Wunderley, L., Mould, A., Cliff, M., Bella, J., Fielding, A., Woodman, P. & Tabernero, L., 10 Nov 2016, In: Structure. 24, 12, p. 0

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2015

Making the longest sugars: a chemical synthesis of heparin-related [4]n oligosaccharides from 16-mer to 40-mer

Hansen, S. U., Miller, G. J., Cliff, M. J., Jaysonc, G. C. & Gardiner, J. M., 24 Jul 2015, In: Chemical Science. 6, 11, p. 6158-6164 6 p.

Research output: Contribution to journal › Article › peer-review

Proteoglycans and Their Heterogeneous Glycosaminoglycans at the Atomic Scale

Sattelle, B. M., Shakeri, J., Cliff, M. J. & Almond, A., Mar 2015, In: Biomacromolecules. 16, 3, p. 951-961 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Real-time pure shift 15N HSQC of proteins: a real improvement in resolution and sensitivity

Kiraly, P., Adams, R. W., Paudel, L., Foroozandeh, M., Aguilar Malavia, J., Timári, I., Cliff, M., Nilsson, M., Sándor, P., Batta, G., Waltho, J., Kövér, K. E. & Morris, G., 2015, In: Journal of Biomolecular Nmr. 62, 1, p. 43-52 10 p.

Research output: Contribution to journal › Article › peer-review

2014

α-Fluorophosphonates reveal how a phosphomutase conserves transition state conformation over hexose recognition in its two-step reaction.

Jin, Y., Bhattasali, D., Pellegrini, E., Forget, S. M., Baxter, N. J., Cliff, M. J., Bowler, M. W., Jakeman, D. L., Blackburn, G. M. & Waltho, J. P., 26 Aug 2014, In: Proceedings of the National Academy of Sciences of the United States of America. 111, 34, p. 12384-12389

Research output: Contribution to journal › Article › peer-review

2013

Simultaneously enhancing spectral resolution and sensitivity in heteronuclear correlation NMR spectroscopy.

Paudel, L., Adams, R. W., Kiraly, P., Aguilar Malavia, J., Foroozandeh, M., Cliff, M., Nilsson, M., Sándor, P., Waltho, J. P. & Morris, G. A., 25 Oct 2013, In: Angewandte Chemie (International ed. in English). 52, 44, p. 11616-11619 4 p.

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Open Access

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The CouPSTU and TarPQM Transporters in Rhodopseudomonas palustris: Redundant, Promiscuous Uptake Systems for Lignin-Derived Aromatic Substrates

Salmon, R. C., Cliff, M. J., Rafferty, J. B. & Kelly, D. J., 28 Mar 2013, In: PLoS ONE. 8, 3

Research output: Contribution to journal › Article › peer-review

2012

Near attack conformers dominate β-phosphoglucomutase complexes where geometry and charge distribution reflect those of substrate

Griffin, J., Bowler, M., Baxter, N., Leigh, K., Dannatt, H., Hounslow, A., Blackburn, G., Webster, C., Cliff, M. & Waltho, J., 1 May 2012, In: Proceedings of the National Academy of Sciences of the United States of America. 109, 18, p. 6910-6915 6 p.

Research output: Contribution to journal › Article › peer-review

Open Access

2010

Atomic details of near-transition state conformers for enzyme phosphoryl transfer revealed by MgF-3 rather than by phosphoranes.

Baxter, N., Bowler, M., Alizadeh, T., Cliff, M., Hounslow, A., Wu, B., Berkowitz, D., Williams, N., Blackburn, G. & Waltho, J., 9 Mar 2010, In: Proceedings of the National Academy of Sciences of the United States of America. 107, 10, p. 4555-4560 6 p.

Research output: Contribution to journal › Article › peer-review

2009

A role for tungsten in the biology of Campylobacter jejuni: Tungstate stimulates formate dehydrogenase activity and is transported via an ultra-high affinity ABC system distinct from the molybdate transporter

Smart, J. P., Cliff, M. J. & Kelly, D. J., 1 Nov 2009, In: Molecular Microbiology. 74, 3, p. 742-757 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

2008

Fhit proteins can also recognize substrates other than dinucleoside polyphosphates

Guranowski, A., Wojdyła, A. M., Pietrowska-Borek, M., Bieganowski, P., Khurs, E. N., Cliff, M. J., Blackburn, G. M., Błaziak, D. & Stec, W. J., 3 Sept 2008, In: FEBS Letters. 582, 20, p. 3152-3158 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

2007

Enzymatic properties of the lactate dehydrogenase enzyme from Plasmodium falciparum

Shoemark, D. K., Cliff, M. J., Sessions, R. B. & Clarke, A. R., Jun 2007, In: FEBS Journal. 274, 11, p. 2738-2748 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Redox-state-dependent complex formation between pseudoazurin and nitrite reductase

Impagliazzo, A., Blok, A. J., Cliff, M. J., Ladbury, J. E. & Ubbink, M., 10 Jan 2007, In: Journal of the American Chemical Society. 129, 1, p. 226-233 8 p.

Research output: Contribution to journal › Article › peer-review

2006

Conformational changes in the AAA ATPase p97-p47 adaptor complex

Beuron, F., Dreveny, I., Yuan, X., Pye, V. E., Mckeown, C., Briggs, L. C., Cliff, M. J., Kaneko, Y., Wallis, R., Isaacson, R. L., Ladbury, J. E., Matthews, S. J., Kondo, H., Zhang, X. & Freemont, P. S., 3 May 2006, In: EMBO Journal. 25, 9, p. 1967-1976 10 p.

Research output: Contribution to journal › Article › peer-review

Conformational diversity in the TPR domain-mediated interaction of protein phosphatase 5 with Hsp90

Cliff, M. J., Harris, R., Barford, D., Ladbury, J. E. & Williams, M. A., 1 Mar 2006, In: Structure. 14, 3, p. 415-426 12 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Elucidation of steps in the capture of a protein substrate for efficient encapsulation by GroE

Cliff, M. J., Limpkin, C., Cameron, A., Burston, S. G. & Clarke, A. R., 9 May 2006, In: Journal of Biological Chemistry. 281, 30, p. 21266-21275 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

The denatured state under native conditions: A non-native-like collapsed state of N-PGK

Reed, M., Jelinska, C., Syson, K., Cliff, M., Splevins, A., Alizadeh, T., Hounslow, A., Staniforth, R., Clarke, A., Craven, C. & Waltho, J., 24 Mar 2006, In: Journal of molecular biology. 357, 2, p. 365-372 8 p.

Research output: Contribution to journal › Article › peer-review

2005

Crystal structure of tobacco etch virus protease shows the protein C terminus bound within the active site

Nunn, C., Jeeves, M., Cliff, M., Urquhart, G., George, R., Chao, L., Tscuchia, Y. & Djordjevic, S., 1 Jul 2005, In: Journal of molecular biology. 350, 1, p. 145-155 11 p.

Research output: Contribution to journal › Article › peer-review

Matthew Cliff

Research output

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